Comparing RNA-Seq and microarray gene expression data in two zones of the Arabidopsis root apex relevant to spaceflight.

ABSTRACT:

Premise of the study

The root apex is an important region involved in environmental sensing, but comprises a very small part of the root. Obtaining root apex transcriptomes is therefore challenging when the samples are limited. The feasibility of using tiny root sections for transcriptome analysis was examined, comparing RNA sequencing (RNA-Seq) to microarrays in characterizing genes that are relevant to spaceflight.

Methods

Arabidopsis thaliana Columbia ecotype (Col-0) roots were sectioned into Zone 1 (0.5 mm; root cap and meristematic zone) and Zone 2 (1.5 mm; transition, elongation, and growth-terminating zone). Differential gene expression in each was compared.

Results

Both microarrays and RNA-Seq proved applicable to the small samples. A total of 4180 gene

SUBMITTER: Krishnamurthy A 

PROVIDER: S-EPMC6240453 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature